code stringlengths 1 1.49M | vector listlengths 0 7.38k | snippet listlengths 0 7.38k |
|---|---|---|
# -*- coding: utf-8 -*-
import os
import threading
def clone_table(table, name, metadata=None):
from sqlalchemy import Table
if not metadata:
metadata = table.metadata
try:
return metadata.tables[name]
except KeyError:
args = []
kwargs = {}
args.append(name)
... | [
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"import os",
"import threading",
"def clone_table(table, name, metadata=None):\n from sqlalchemy import Table\n if not metadata:\n metadata = table.metadata\n try:\n return metadata.tables[name]\n except KeyError:\n args = []",
" from sqlalchemy import Table",
" if not... |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
"""
mmqueue (mongodb message queue)
example:
job = mmqueue.get(con.db.collection, block=True)
with job:
do_something_with(job)
or
job = mmqueue.get(con.db.collection, block=True)
try:
do_something_with(job)
except:
...
els... | [
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"\"\"\"\nmmqueue (mongodb message queue)\nexample:\n job = mmqueue.get(con.db.collection, block=True)\n with job:\n do_something_with(job)\n or\n job = mmqueue.get(con.db.collection, block=True)",
"from datetime import datetime, timedelta",
"import time",
"class Job(object):\n def __init... |
# -*- coding: utf-8 -*-
import os.path
from ..globals import request
class _IgnoreException(object):
def __enter__(self):
pass
def __exit__(self, type, value, tb):
return True
ignore_exception = _IgnoreException()
def shell(namespace=None):
banner = "accost debug shell"
if namespace... | [
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"import os.path",
"from ..globals import request",
"class _IgnoreException(object):\n def __enter__(self):\n pass\n\n def __exit__(self, type, value, tb):\n return True",
" def __enter__(self):\n pass",
" def __exit__(self, type, value, tb):\n return True",
" ... |
#-*- coding: utf-8 -*- | [] | [] |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
from functools import wraps
from datetime import datetime, timedelta
from werkzeug.contrib.cache import BaseCache
from werkzeug.wrappers import Response
from ..globals import request
class MongoCache(BaseCache):
def __init__(self, collection, default_timeout=300, key_... | [
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"from functools import wraps",
"from datetime import datetime, timedelta",
"from werkzeug.contrib.cache import BaseCache",
"from werkzeug.wrappers import Response",
"from ..globals import request",
"class MongoCache(BaseCache):\n def __init__(self, collection, default_timeout=300, key_prefix=None):\n ... |
# Copyright (c) 2006-2007 Open Source Applications Foundation
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless require... | [
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"from SimpleXMLRPCServer import SimpleXMLRPCDispatcher",
"import logging",
"logger = logging.getLogger(__name__)",
"class WSGIXMLRPCApplication(object):\n \"\"\"Application to handle requests to the XMLRPC service\"\"\"\n\n def __init__(self, instance=None, methods=[]):\n \"\"\"Create windmill xm... |
# (c) 2005 Ian Bicking and contributors; written for Paste (http://pythonpaste.org)
# Licensed under the MIT license: http://www.opensource.org/licenses/mit-license.php
"""
An application that proxies WSGI requests to a remote server.
TODO:
* Send ``Via`` header? It's not clear to me this is a Via in the
style of ... | [
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"\"\"\"\nAn application that proxies WSGI requests to a remote server.\n\nTODO:\n\n* Send ``Via`` header? It's not clear to me this is a Via in the\n style of a typical proxy.",
"import httplib",
"import urlparse",
"import urllib",
"import os",
"filtered_headers = ( \n 'transfer-encoding',\n '... |
# -*- coding: utf-8 -*-
from .globals import _request_ctx_stack, request
def flash(message, category='message'):
"""Flashes a message to the next request. In order to remove the
flashed message from the session and to display it to the user,
the template has to call :func:`get_flashed_messages`.
.. ... | [
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"from .globals import _request_ctx_stack, request",
"def flash(message, category='message'):\n \"\"\"Flashes a message to the next request. In order to remove the\n flashed message from the session and to display it to the user,\n the template has to call :func:`get_flashed_messages`.\n\n .. versionc... |
# -*- coding: utf-8 -*-
import os
import sys
import time
from StringIO import StringIO
from .gzip import GzipMiddleware
from ..globals import request
############################################################################
__all__ = ['ProfilerMiddleware', 'TimeMiddleware', 'ChangeProcessTitleMiddleware',
'Exception... | [
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"from ..globals import request",
"__all__ = ['ProfilerMiddleware', 'TimeMiddleware', 'ChangeProcessTitleMiddleware',\n'ExceptionTemplateMiddleware', 'GzipMiddleware', 'StormSQLMiddleware']",
... |
# -*- coding: utf-8 -*-
from functools import partial
from os.path import abspath, dirname
from werkzeug import LocalStack, LocalProxy
def _lookup_object(name):
top = _request_ctx_stack.top
if top is None:
raise RuntimeError('working outside of request context')
return getattr(top, name)
_reques... | [
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[
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"from functools import partial",
"from os.path import abspath, dirname",
"from werkzeug import LocalStack, LocalProxy",
"def _lookup_object(name):\n top = _request_ctx_stack.top\n if top is None:\n raise RuntimeError('working outside of request context')\n return getattr(top, name)",
" to... |
# -*- coding: utf-8 -*-
"""
werkzeug.contrib.profiler
~~~~~~~~~~~~~~~~~~~~~~~~~
This module provides a simple WSGI profiler middleware for finding
bottlenecks in web application. It uses the :mod:`profile` or
:mod:`cProfile` module to do the profiling and writes the stats to the
stream provide... | [
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"\"\"\"\n werkzeug.contrib.profiler\n ~~~~~~~~~~~~~~~~~~~~~~~~~\n\n This module provides a simple WSGI profiler middleware for finding\n bottlenecks in web application. It uses the :mod:`profile` or\n :mod:`cProfile` module to do the profiling and writes the stats to the\n stream provided (defaul... |
# -*- coding: utf-8 -*-
"""
werkzeug.contrib.jsrouting
~~~~~~~~~~~~~~~~~~~~~~~~~~
Addon module that allows to create a JavaScript function from a map
that generates rules.
:copyright: (c) 2010 by the Werkzeug Team, see AUTHORS for more details.
:license: BSD, see LICENSE for more details.
"""
... | [
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"\"\"\"\n werkzeug.contrib.jsrouting\n ~~~~~~~~~~~~~~~~~~~~~~~~~~\n\n Addon module that allows to create a JavaScript function from a map\n that generates rules.\n\n :copyright: (c) 2010 by the Werkzeug Team, see AUTHORS for more details.",
"try:\n from simplejson import dumps\nexcept ImportErro... |
# -*- coding: utf-8 -*-
"""
werkzeug.contrib.wrappers
~~~~~~~~~~~~~~~~~~~~~~~~~
Extra wrappers or mixins contributed by the community. These wrappers can
be mixed in into request objects to add extra functionality.
Example::
from werkzeug import Request as RequestBase
from werkze... | [
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"\"\"\"\n werkzeug.contrib.wrappers\n ~~~~~~~~~~~~~~~~~~~~~~~~~\n\n Extra wrappers or mixins contributed by the community. These wrappers can\n be mixed in into request objects to add extra functionality.\n\n Example::",
"import codecs",
"from werkzeug.exceptions import BadRequest",
"from werk... |
# -*- coding: utf-8 -*-
r"""
werkzeug.contrib.securecookie
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
This module implements a cookie that is not alterable from the client
because it adds a checksum the server checks for. You can use it as
session replacement if all you have is a user id or something to mark
... | [
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... | [
"r\"\"\"\n werkzeug.contrib.securecookie\n ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~\n\n This module implements a cookie that is not alterable from the client\n because it adds a checksum the server checks for. You can use it as\n session replacement if all you have is a user id or something to mark\n a logg... |
# -*- coding: utf-8 -*-
"""
werkzeug.contrib.fixers
~~~~~~~~~~~~~~~~~~~~~~~
.. versionadded:: 0.5
This module includes various helpers that fix bugs in web servers. They may
be necessary for some versions of a buggy web server but not others. We try
to stay updated with the status of the bug... | [
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"\"\"\"\n werkzeug.contrib.fixers\n ~~~~~~~~~~~~~~~~~~~~~~~\n\n .. versionadded:: 0.5\n\n This module includes various helpers that fix bugs in web servers. They may\n be necessary for some versions of a buggy web server but not others. We try",
"from urllib import unquote",
"from werkzeug.http... |
# -*- coding: utf-8 -*-
r"""
werkzeug.contrib.iterio
~~~~~~~~~~~~~~~~~~~~~~~
This module implements a :class:`IterIO` that converts an iterator into
a stream object and the other way round. Converting streams into
iterators requires the `greenlet`_ module.
To convert an iterator into a stream... | [
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"r\"\"\"\n werkzeug.contrib.iterio\n ~~~~~~~~~~~~~~~~~~~~~~~\n\n This module implements a :class:`IterIO` that converts an iterator into\n a stream object and the other way round. Converting streams into\n iterators requires the `greenlet`_ module.",
"try:\n from py.magic import greenlet\nexcep... |
# -*- coding: utf-8 -*-
"""
werkzeug.contrib.limiter
~~~~~~~~~~~~~~~~~~~~~~~~
A middleware that limits incoming data. This works around problems with
Trac_ or Django_ because those directly stream into the memory.
.. _Trac: http://trac.edgewall.org/
.. _Django: http://www.djangoproject.com/
... | [
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"\"\"\"\n werkzeug.contrib.limiter\n ~~~~~~~~~~~~~~~~~~~~~~~~\n\n A middleware that limits incoming data. This works around problems with\n Trac_ or Django_ because those directly stream into the memory.\n\n .. _Trac: http://trac.edgewall.org/",
"from warnings import warn",
"from werkzeug import... |
# -*- coding: utf-8 -*-
"""
werkzeug.contrib.lint
~~~~~~~~~~~~~~~~~~~~~
.. versionadded:: 0.5
This module provides a middleware that performs sanity checks of the WSGI
application. It checks that :pep:`333` is properly implemented and warns
on some common HTTP errors such as non-empty respons... | [
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"\"\"\"\n werkzeug.contrib.lint\n ~~~~~~~~~~~~~~~~~~~~~\n\n .. versionadded:: 0.5\n\n This module provides a middleware that performs sanity checks of the WSGI\n application. It checks that :pep:`333` is properly implemented and warns",
"from urlparse import urlparse",
"from warnings import warn... |
# -*- coding: utf-8 -*-
"""
werkzeug.contrib.atom
~~~~~~~~~~~~~~~~~~~~~
This module provides a class called :class:`AtomFeed` which can be
used to generate feeds in the Atom syndication format (see :rfc:`4287`).
Example::
def atom_feed(request):
feed = AtomFeed("My Blog", feed... | [
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"\"\"\"\n werkzeug.contrib.atom\n ~~~~~~~~~~~~~~~~~~~~~\n\n This module provides a class called :class:`AtomFeed` which can be\n used to generate feeds in the Atom syndication format (see :rfc:`4287`).\n\n Example::",
"from datetime import datetime",
"from werkzeug.utils import escape",
"from w... |
# -*- coding: utf-8 -*-
"""
werkzeug.contrib
~~~~~~~~~~~~~~~~
Contains user-submitted code that other users may find useful, but which
is not part of the Werkzeug core. Anyone can write code for inclusion in
the `contrib` package. All modules in this package are distributed as an
add-on libra... | [
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"\"\"\"\n werkzeug.contrib\n ~~~~~~~~~~~~~~~~\n\n Contains user-submitted code that other users may find useful, but which\n is not part of the Werkzeug core. Anyone can write code for inclusion in\n the `contrib` package. All modules in this package are distributed as an\n add-on library and th... |
# -*- coding: utf-8 -*-
"""
werkzeug.contrib.cache
~~~~~~~~~~~~~~~~~~~~~~
The main problem with dynamic Web sites is, well, they're dynamic. Each
time a user requests a page, the webserver executes a lot of code, queries
the database, renders templates until the visitor gets the page he sees.
... | [
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"\"\"\"\n werkzeug.contrib.cache\n ~~~~~~~~~~~~~~~~~~~~~~\n\n The main problem with dynamic Web sites is, well, they're dynamic. Each\n time a user requests a page, the webserver executes a lot of code, queries\n the database, renders templates until the visitor gets the page he sees.",
"import os... |
# -*- coding: utf-8 -*-
"""
werkzeug.contrib.testtools
~~~~~~~~~~~~~~~~~~~~~~~~~~
This module implements extended wrappers for simplified testing.
`TestResponse`
A response wrapper which adds various cached attributes for
simplified assertions on various content types.
:copyright:... | [
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"\"\"\"\n werkzeug.contrib.testtools\n ~~~~~~~~~~~~~~~~~~~~~~~~~~\n\n This module implements extended wrappers for simplified testing.\n\n `TestResponse`\n A response wrapper which adds various cached attributes for",
"from werkzeug import Response, cached_property, import_string",
"class Con... |
# -*- coding: utf-8 -*-
"""
werkzeug.urls
~~~~~~~~~~~~~
This module implements various URL related functions.
:copyright: (c) 2010 by the Werkzeug Team, see AUTHORS for more details.
:license: BSD, see LICENSE for more details.
"""
import urlparse
from werkzeug._internal import _decode_unicode
... | [
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"\"\"\"\n werkzeug.urls\n ~~~~~~~~~~~~~\n\n This module implements various URL related functions.\n\n :copyright: (c) 2010 by the Werkzeug Team, see AUTHORS for more details.\n :license: BSD, see LICENSE for more details.",
"import urlparse",
"from werkzeug._internal import _decode_unicode",
"_... |
# -*- coding: utf-8 -*-
"""
werkzeug.local
~~~~~~~~~~~~~~
This module implements context-local objects.
:copyright: (c) 2010 by the Werkzeug Team, see AUTHORS for more details.
:license: BSD, see LICENSE for more details.
"""
try:
from greenlet import getcurrent as get_current_greenlet
except ... | [
[
8,
0,
0.0148,
0.0222,
0,
0.66,
0,
0,
1,
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[
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[
1,
1,
0.0296,
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1,
0.32,
0... | [
"\"\"\"\n werkzeug.local\n ~~~~~~~~~~~~~~\n\n This module implements context-local objects.\n\n :copyright: (c) 2010 by the Werkzeug Team, see AUTHORS for more details.\n :license: BSD, see LICENSE for more details.",
"try:\n from greenlet import getcurrent as get_current_greenlet\nexcept Import... |
# -*- coding: utf-8 -*-
"""
werkzeug.useragents
~~~~~~~~~~~~~~~~~~~
This module provides a helper to inspect user agent strings. This module
is far from complete but should work for most of the currently available
browsers.
:copyright: (c) 2010 by the Werkzeug Team, see AUTHORS for more deta... | [
[
8,
0,
0.0405,
0.0649,
0,
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0,
1,
0,
0,
0,
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[
1,
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[
3,
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0,
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... | [
"\"\"\"\n werkzeug.useragents\n ~~~~~~~~~~~~~~~~~~~\n\n This module provides a helper to inspect user agent strings. This module\n is far from complete but should work for most of the currently available\n browsers.",
"import re",
"class UserAgentParser(object):\n \"\"\"A simple user agent pa... |
# -*- coding: utf-8 -*-
"""
werkzeug.utils
~~~~~~~~~~~~~~
This module implements various utilities for WSGI applications. Most of
them are used by the request and response wrappers but especially for
middleware development it makes sense to use them without the wrappers.
:copyright: (c) 2010 ... | [
[
8,
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[
1,
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0,
0.66... | [
"\"\"\"\n werkzeug.utils\n ~~~~~~~~~~~~~~\n\n This module implements various utilities for WSGI applications. Most of\n them are used by the request and response wrappers but especially for\n middleware development it makes sense to use them without the wrappers.",
"import re",
"import os",
"f... |
# -*- coding: utf-8 -*-
"""
werkzeug.exceptions
~~~~~~~~~~~~~~~~~~~
This module implements a number of Python exceptions you can raise from
within your views to trigger a standard non-200 response.
Usage Example
-------------
::
from werkzeug import BaseRequest, responder
... | [
[
8,
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[
1,
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0,
0.66... | [
"\"\"\"\n werkzeug.exceptions\n ~~~~~~~~~~~~~~~~~~~\n\n This module implements a number of Python exceptions you can raise from\n within your views to trigger a standard non-200 response.",
"import sys",
"from werkzeug._internal import HTTP_STATUS_CODES, _get_environ",
"class HTTPException(Excepti... |
# -*- coding: utf-8 -*-
"""
werkzeug
~~~~~~~~
Werkzeug is the Swiss Army knife of Python web development.
It provides useful classes and functions for any WSGI application to make
the life of a python web developer much easier. All of the provided
classes are independent from each other so yo... | [
[
8,
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"\"\"\"\n werkzeug\n ~~~~~~~~\n\n Werkzeug is the Swiss Army knife of Python web development.\n\n It provides useful classes and functions for any WSGI application to make\n the life of a python web developer much easier. All of the provided",
"from types import ModuleType",
"import sys",
"all... |
# -*- coding: utf-8 -*-
"""
werkzeug.wsgi
~~~~~~~~~~~~~
This module implements WSGI related helpers.
:copyright: (c) 2010 by the Werkzeug Team, see AUTHORS for more details.
:license: BSD, see LICENSE for more details.
"""
import os
import urllib
import urlparse
import posixpath
import mimetypes
f... | [
[
8,
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0.0079,
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0,
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"\"\"\"\n werkzeug.wsgi\n ~~~~~~~~~~~~~\n\n This module implements WSGI related helpers.\n\n :copyright: (c) 2010 by the Werkzeug Team, see AUTHORS for more details.\n :license: BSD, see LICENSE for more details.",
"import os",
"import urllib",
"import urlparse",
"import posixpath",
"import... |
# -*- coding: utf-8 -*-
"""
werkzeug.security
~~~~~~~~~~~~~~~~~
Security related helpers such as secure password hashing tools.
:copyright: (c) 2010 by the Werkzeug Team, see AUTHORS for more details.
:license: BSD, see LICENSE for more details.
"""
import hmac
import string
from random import Sys... | [
[
8,
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0.0865,
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[
1,
0,
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0.0096,
0,
0.66,
... | [
"\"\"\"\n werkzeug.security\n ~~~~~~~~~~~~~~~~~\n\n Security related helpers such as secure password hashing tools.\n\n :copyright: (c) 2010 by the Werkzeug Team, see AUTHORS for more details.\n :license: BSD, see LICENSE for more details.",
"import hmac",
"import string",
"from random import S... |
# -*- coding: utf-8 -*-
from wsgiref.handlers import CGIHandler
from manage import application
CGIHandler().run(application)
| [
[
1,
0,
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0.25,
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0,
797,
0,
0
],
[
8,
0,
1,
0.25,
0,
0.66,
1,
67... | [
"from wsgiref.handlers import CGIHandler",
"from manage import application",
"CGIHandler().run(application)"
] |
import unittest
import doctest
def additional_tests():
import simplejson
import simplejson.encoder
import simplejson.decoder
suite = unittest.TestSuite()
for mod in (simplejson, simplejson.encoder, simplejson.decoder):
suite.addTest(doctest.DocTestSuite(mod))
suite.addTest(doctest.DocFi... | [
[
1,
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1,
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0,
0,
614,
0,
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],
[
2,
0,
0.3478,
0.3913,
0,
0.66,... | [
"import unittest",
"import doctest",
"def additional_tests():\n import simplejson\n import simplejson.encoder\n import simplejson.decoder\n suite = unittest.TestSuite()\n for mod in (simplejson, simplejson.encoder, simplejson.decoder):\n suite.addTest(doctest.DocTestSuite(mod))\n suite.... |
"""Implementation of JSONEncoder
"""
import re
try:
from simplejson._speedups import encode_basestring_ascii as c_encode_basestring_ascii
except ImportError:
c_encode_basestring_ascii = None
try:
from simplejson._speedups import make_encoder as c_make_encoder
except ImportError:
c_make_encoder = None
... | [
[
8,
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[
7,
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0,
0.66... | [
"\"\"\"Implementation of JSONEncoder\n\"\"\"",
"import re",
"try:\n from simplejson._speedups import encode_basestring_ascii as c_encode_basestring_ascii\nexcept ImportError:\n c_encode_basestring_ascii = None",
" from simplejson._speedups import encode_basestring_ascii as c_encode_basestring_ascii",... |
r"""JSON (JavaScript Object Notation) <http://json.org> is a subset of
JavaScript syntax (ECMA-262 3rd edition) used as a lightweight data
interchange format.
:mod:`simplejson` exposes an API familiar to users of the standard library
:mod:`marshal` and :mod:`pickle` modules. It is the externally maintained
version of ... | [
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[
14,
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0,
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[
14,
0,
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0,
0.66... | [
"r\"\"\"JSON (JavaScript Object Notation) <http://json.org> is a subset of\nJavaScript syntax (ECMA-262 3rd edition) used as a lightweight data\ninterchange format.\n\n:mod:`simplejson` exposes an API familiar to users of the standard library\n:mod:`marshal` and :mod:`pickle` modules. It is the externally maintaine... |
"""JSON token scanner
"""
import re
try:
from simplejson._speedups import make_scanner as c_make_scanner
except ImportError:
c_make_scanner = None
__all__ = ['make_scanner']
NUMBER_RE = re.compile(
r'(-?(?:0|[1-9]\d*))(\.\d+)?([eE][-+]?\d+)?',
(re.VERBOSE | re.MULTILINE | re.DOTALL))
def py_make_scan... | [
[
8,
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[
7,
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0.66... | [
"\"\"\"JSON token scanner\n\"\"\"",
"import re",
"try:\n from simplejson._speedups import make_scanner as c_make_scanner\nexcept ImportError:\n c_make_scanner = None",
" from simplejson._speedups import make_scanner as c_make_scanner",
" c_make_scanner = None",
"__all__ = ['make_scanner']",
... |
############################################################
# #
# The implementation of PHPRPC Protocol 3.0 #
# #
# fpconst.py #
# ... | [
[
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[
14,
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0,
0,
0,
0,
2,
0
],
[
14,
0,
0.3861,
0.0099,
0,
... | [
"import types",
"PosInf = 1e300000",
"NegInf = -1e300000",
"NaN = PosInf/PosInf",
"def isPosInf(value):\n return (PosInf == value)",
" return (PosInf == value)",
"def isNegInf(value):\n return (NegInf == value)",
" return (NegInf == value)",
"def isInf(value):\n return (PosInf == valu... |
############################################################
# #
# The implementation of PHPRPC Protocol 3.0 #
# #
# xxtea.py #
# ... | [
[
1,
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[
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673,
1,
0,
0,
0,
0,
1,
0
],
[
2,
0,
0.404,
0.1111,
0,
0.... | [
"import struct",
"_DELTA = 0x9E3779B9",
"def _long2str(v, w):\n n = (len(v) - 1) << 2\n if w:\n m = v[-1]\n if (m < n - 3) or (m > n): return ''\n n = m\n s = struct.pack('<%iL' % len(v), *v)\n if w :",
" n = (len(v) - 1) << 2",
" if w:\n m = v[-1]\n if (... |
# Copyright (c) 2006 Allan Saddi <allan@saddi.com>
# All rights reserved.
#
# Redistribution and use in source and binary forms, with or without
# modification, are permitted provided that the following conditions
# are met:
# 1. Redistributions of source code must retain the above copyright
# notice, this list of c... | [
[
14,
0,
0.1534,
0.0057,
0,
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0,
777,
1,
0,
0,
0,
0,
3,
0
],
[
14,
0,
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0,
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162,
1,
0,
0,
0,
0,
3,
0
],
[
1,
0,
0.1705,
0.0057,
0,
0.... | [
"__author__ = 'Allan Saddi <allan@saddi.com>'",
"__version__ = '$Revision$'",
"import select",
"import struct",
"import socket",
"import errno",
"__all__ = ['SCGIApp']",
"def encodeNetstring(s):\n return ''.join([str(len(s)), ':', s, ','])",
" return ''.join([str(len(s)), ':', s, ','])",
"cl... |
#
| [] | [] |
# Copyright (c) 2005 Allan Saddi <allan@saddi.com>
# All rights reserved.
#
# Redistribution and use in source and binary forms, with or without
# modification, are permitted provided that the following conditions
# are met:
# 1. Redistributions of source code must retain the above copyright
# notice, this list of c... | [
[
14,
0,
0.2231,
0.0083,
0,
0.66,
0,
777,
1,
0,
0,
0,
0,
3,
0
],
[
14,
0,
0.2314,
0.0083,
0,
0.66,
0.2,
162,
1,
0,
0,
0,
0,
3,
0
],
[
1,
0,
0.2479,
0.0083,
0,
0.66,... | [
"__author__ = 'Allan Saddi <allan@saddi.com>'",
"__version__ = '$Revision$'",
"import sys",
"import thread",
"import threading",
"class ThreadPool(object):\n \"\"\"\n Thread pool that maintains the number of idle threads between\n minSpare and maxSpare inclusive. By default, there is no limit on\... |
#
| [] | [] |
def helper(wsgiServerClass, global_conf, host, port, **local_conf):
# I think I can't write a tuple for bindAddress in .ini file
host = host or global_conf.get('host', 'localhost')
port = port or global_conf.get('port', 4000)
if 'socket' in local_conf:
local_conf['bindAddress'] = local_conf['so... | [
[
2,
0,
0.5278,
1,
0,
0.66,
0,
419,
0,
5,
1,
0,
0,
0,
6
],
[
14,
1,
0.1667,
0.0556,
1,
0.86,
0,
867,
0,
0,
0,
0,
0,
0,
1
],
[
14,
1,
0.2222,
0.0556,
1,
0.86,
0.... | [
"def helper(wsgiServerClass, global_conf, host, port, **local_conf):\n # I think I can't write a tuple for bindAddress in .ini file\n host = host or global_conf.get('host', 'localhost')\n port = port or global_conf.get('port', 4000)\n\n if 'socket' in local_conf:\n local_conf['bindAddress'] = loc... |
#
| [] | [] |
# -*- coding: utf-8 -*-
"""
jinja2.runtime
~~~~~~~~~~~~~~
Runtime helpers.
:copyright: Copyright 2008 by Armin Ronacher.
:license: BSD.
"""
import sys
from types import FunctionType, MethodType
from itertools import chain, imap
from jinja2.utils import Markup, partial, soft_unicode, escape, missin... | [
[
8,
0,
0.0131,
0.0196,
0,
0.66,
0,
0,
1,
0,
0,
0,
0,
0,
0
],
[
1,
0,
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509,
0,
1,
0,
0,
509,
0,
0
],
[
1,
0,
0.0261,
0.0022,
0,
0.66,... | [
"\"\"\"\n jinja2.runtime\n ~~~~~~~~~~~~~~\n\n Runtime helpers.\n\n :copyright: Copyright 2008 by Armin Ronacher.\n :license: BSD.",
"import sys",
"from types import FunctionType, MethodType",
"from itertools import chain, imap",
"from jinja2.utils import Markup, partial, soft_unicode, escape,... |
# -*- coding: utf-8 -*-
"""
jinja2.compiler
~~~~~~~~~~~~~~~
Compiles nodes into python code.
:copyright: Copyright 2008 by Armin Ronacher.
:license: BSD.
"""
from copy import copy
from keyword import iskeyword
from cStringIO import StringIO
from itertools import chain
from jinja2 import nodes
from... | [
[
8,
0,
0.0042,
0.0064,
0,
0.66,
0,
0,
1,
0,
0,
0,
0,
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[
1,
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1,
0,
0,
739,
0,
0
],
[
1,
0,
0.0085,
0.0007,
0,
0.66... | [
"\"\"\"\n jinja2.compiler\n ~~~~~~~~~~~~~~~\n\n Compiles nodes into python code.\n\n :copyright: Copyright 2008 by Armin Ronacher.\n :license: BSD.",
"from copy import copy",
"from keyword import iskeyword",
"from cStringIO import StringIO",
"from itertools import chain",
"from jinja2 impor... |
# -*- coding: utf-8 -*-
"""
jinja2.nodes
~~~~~~~~~~~~
This module implements additional nodes derived from the ast base node.
It also provides some node tree helper functions like `in_lineno` and
`get_nodes` used by the parser and translator in order to normalize
python and jinja nodes.
:... | [
[
8,
0,
0.0099,
0.016,
0,
0.66,
0,
0,
1,
0,
0,
0,
0,
0,
0
],
[
1,
0,
0.0185,
0.0012,
0,
0.66,
0.0137,
616,
0,
1,
0,
0,
616,
0,
0
],
[
1,
0,
0.0197,
0.0012,
0,
0.66,... | [
"\"\"\"\n jinja2.nodes\n ~~~~~~~~~~~~\n\n This module implements additional nodes derived from the ast base node.\n\n It also provides some node tree helper functions like `in_lineno` and\n `get_nodes` used by the parser and translator in order to normalize",
"import operator",
"from copy import ... |
# -*- coding: utf-8 -*-
"""
jinja2.tests
~~~~~~~~~~~~
Jinja test functions. Used with the "is" operator.
:copyright: 2007 by Armin Ronacher.
:license: BSD, see LICENSE for more details.
"""
import re
from jinja2.runtime import Undefined
number_re = re.compile(r'^-?\d+(\.\d+)?$')
regex_type = typ... | [
[
8,
0,
0.0441,
0.0662,
0,
0.66,
0,
0,
1,
0,
0,
0,
0,
0,
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],
[
1,
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0.0809,
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1,
0,
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540,
0,
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],
[
1,
0,
0.0882,
0.0074,
0,
0.66... | [
"\"\"\"\n jinja2.tests\n ~~~~~~~~~~~~\n\n Jinja test functions. Used with the \"is\" operator.\n\n :copyright: 2007 by Armin Ronacher.\n :license: BSD, see LICENSE for more details.",
"import re",
"from jinja2.runtime import Undefined",
"number_re = re.compile(r'^-?\\d+(\\.\\d+)?$')",
"regex_... |
# -*- coding: utf-8 -*-
"""
jinja2.debug
~~~~~~~~~~~~
Implements the debug interface for Jinja. This module does some pretty
ugly stuff with the Python traceback system in order to achieve tracebacks
with correct line numbers, locals and contents.
:copyright: Copyright 2008 by Armin Ronacher.... | [
[
8,
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[
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0,
0,
509,
0,
0
],
[
1,
0,
0.0733,
0.0052,
0,
0.66... | [
"\"\"\"\n jinja2.debug\n ~~~~~~~~~~~~\n\n Implements the debug interface for Jinja. This module does some pretty\n ugly stuff with the Python traceback system in order to achieve tracebacks\n with correct line numbers, locals and contents.",
"import sys",
"from types import CodeType",
"def tra... |
# -*- coding: utf-8 -*-
"""
jinja2.optimizer
~~~~~~~~~~~~~~~~
The jinja optimizer is currently trying to constant fold a few expressions
and modify the AST in place so that it should be easier to evaluate it.
Because the AST does not contain all the scoping information and the
compiler has to ... | [
[
8,
0,
0.1471,
0.25,
0,
0.66,
0,
0,
1,
0,
0,
0,
0,
0,
0
],
[
1,
0,
0.2794,
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0,
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0.25,
436,
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1,
0,
0,
436,
0,
0
],
[
1,
0,
0.2941,
0.0147,
0,
0.66,
... | [
"\"\"\"\n jinja2.optimizer\n ~~~~~~~~~~~~~~~~\n\n The jinja optimizer is currently trying to constant fold a few expressions\n and modify the AST in place so that it should be easier to evaluate it.\n\n Because the AST does not contain all the scoping information and the",
"from jinja2 import nodes... |
# -*- coding: utf-8 -*-
"""
jinja.constants
~~~~~~~~~~~~~~~
Various constants.
:copyright: 2007 by Armin Ronacher.
:license: BSD, see LICENSE for more details.
"""
#: list of lorem ipsum words used by the lipsum() helper function
LOREM_IPSUM_WORDS = u'''\
a ac accumsan ad adipiscing aenean aliqu... | [
[
8,
0,
0.1875,
0.2812,
0,
0.66,
0,
0,
1,
0,
0,
0,
0,
0,
0
],
[
14,
0,
0.7188,
0.5938,
0,
0.66,
1,
350,
1,
0,
0,
0,
0,
3,
0
]
] | [
"\"\"\"\n jinja.constants\n ~~~~~~~~~~~~~~~\n\n Various constants.\n\n :copyright: 2007 by Armin Ronacher.\n :license: BSD, see LICENSE for more details.",
"LOREM_IPSUM_WORDS = u'''\\\na ac accumsan ad adipiscing aenean aliquam aliquet amet ante aptent arcu at\nauctor augue bibendum blandit class c... |
# -*- coding: utf-8 -*-
"""
jinja2.sandbox
~~~~~~~~~~~~~~
Adds a sandbox layer to Jinja as it was the default behavior in the old
Jinja 1 releases. This sandbox is slightly different from Jinja 1 as the
default behavior is easier to use.
The behavior can be changed by subclassing the environm... | [
[
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1,
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1,
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616,
0,
0
],
[
1,
0,
0.066,
0.008,
0,
0.66,
0... | [
"\"\"\"\n jinja2.sandbox\n ~~~~~~~~~~~~~~\n\n Adds a sandbox layer to Jinja as it was the default behavior in the old\n Jinja 1 releases. This sandbox is slightly different from Jinja 1 as the\n default behavior is easier to use.",
"import operator",
"from types import FunctionType, MethodType, ... |
# -*- coding: utf-8 -*-
"""
jinja2.loaders
~~~~~~~~~~~~~~
Jinja loader classes.
:copyright: 2008 by Armin Ronacher.
:license: BSD, see LICENSE for more details.
"""
from os import path
try:
from hashlib import sha1
except ImportError:
from sha import new as sha1
from jinja2.exceptions impo... | [
[
8,
0,
0.0217,
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0,
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[
7,
0,
0.0489,
0.0145,
0,
0.66... | [
"\"\"\"\n jinja2.loaders\n ~~~~~~~~~~~~~~\n\n Jinja loader classes.\n\n :copyright: 2008 by Armin Ronacher.\n :license: BSD, see LICENSE for more details.",
"from os import path",
"try:\n from hashlib import sha1\nexcept ImportError:\n from sha import new as sha1",
" from hashlib impor... |
# -*- coding: utf-8 -*-
"""
jinja2.exceptions
~~~~~~~~~~~~~~~~~
Jinja exceptions.
:copyright: 2008 by Armin Ronacher.
:license: BSD, see LICENSE for more details.
"""
class TemplateError(Exception):
"""Baseclass for all template errors."""
class TemplateNotFound(IOError, LookupError, Templ... | [
[
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[
8,
1,
0.1892,
0.0135,
1,
0.85,
... | [
"\"\"\"\n jinja2.exceptions\n ~~~~~~~~~~~~~~~~~\n\n Jinja exceptions.\n\n :copyright: 2008 by Armin Ronacher.\n :license: BSD, see LICENSE for more details.",
"class TemplateError(Exception):\n \"\"\"Baseclass for all template errors.\"\"\"",
" \"\"\"Baseclass for all template errors.\"\"\"... |
# -*- coding: utf-8 -*-
"""
jinja2
~~~~~~
Jinja2 is a template engine written in pure Python. It provides a
Django inspired non-XML syntax but supports inline expressions and
an optional sandboxed environment.
Nutshell
--------
Here a small example of a Jinja2 template::
{% ... | [
[
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[
7,
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"\"\"\"\n jinja2\n ~~~~~~\n\n Jinja2 is a template engine written in pure Python. It provides a\n Django inspired non-XML syntax but supports inline expressions and\n an optional sandboxed environment.",
"__docformat__ = 'restructuredtext en'",
"try:\n __version__ = __import__('pkg_resources'... |
# -*- coding: utf-8 -*-
"""
jinja2.filters
~~~~~~~~~~~~~~
Bundled jinja filters.
:copyright: 2008 by Armin Ronacher, Christoph Hack.
:license: BSD, see LICENSE for more details.
"""
import re
import math
import textwrap
from random import choice
from operator import itemgetter
from itertools impor... | [
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[
1,
0,
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0.0015,
0,
0.66,
... | [
"\"\"\"\n jinja2.filters\n ~~~~~~~~~~~~~~\n\n Bundled jinja filters.\n\n :copyright: 2008 by Armin Ronacher, Christoph Hack.\n :license: BSD, see LICENSE for more details.",
"import re",
"import math",
"import textwrap",
"from random import choice",
"from operator import itemgetter",
"fro... |
# -*- coding: utf-8 -*-
"""
jinja2.defaults
~~~~~~~~~~~~~~~
Jinja default filters and tags.
:copyright: 2007-2008 by Armin Ronacher.
:license: BSD, see LICENSE for more details.
"""
from jinja2.utils import generate_lorem_ipsum
# defaults for the parser / lexer
BLOCK_START_STRING = '{%'
BLOCK_EN... | [
[
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0,
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0,
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[
14,
0,
0.4054,
0.027,
0,
0.66,... | [
"\"\"\"\n jinja2.defaults\n ~~~~~~~~~~~~~~~\n\n Jinja default filters and tags.\n\n :copyright: 2007-2008 by Armin Ronacher.\n :license: BSD, see LICENSE for more details.",
"from jinja2.utils import generate_lorem_ipsum",
"BLOCK_START_STRING = '{%'",
"BLOCK_END_STRING = '%}'",
"VARIABLE_STAR... |
# -*- coding: utf-8 -*-
"""
jinja2.parser
~~~~~~~~~~~~~
Implements the template parser.
:copyright: 2008 by Armin Ronacher.
:license: BSD, see LICENSE for more details.
"""
from jinja2 import nodes
from jinja2.exceptions import TemplateSyntaxError, TemplateAssertionError
_statement_keywords = fr... | [
[
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[
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... | [
"\"\"\"\n jinja2.parser\n ~~~~~~~~~~~~~\n\n Implements the template parser.\n\n :copyright: 2008 by Armin Ronacher.\n :license: BSD, see LICENSE for more details.",
"from jinja2 import nodes",
"from jinja2.exceptions import TemplateSyntaxError, TemplateAssertionError",
"_statement_keywords = fr... |
# -*- coding: utf-8 -*-
"""
jinja2.visitor
~~~~~~~~~~~~~~
This module implements a visitor for the nodes.
:copyright: Copyright 2008 by Armin Ronacher.
:license: BSD.
"""
from jinja2.nodes import Node
class NodeVisitor(object):
"""Walks the abstract syntax tree and call visitor functions for... | [
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990,
0,
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[
3,
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0.3333,
0.3563,
0,
0.66,... | [
"\"\"\"\n jinja2.visitor\n ~~~~~~~~~~~~~~\n\n This module implements a visitor for the nodes.\n\n :copyright: Copyright 2008 by Armin Ronacher.\n :license: BSD.",
"from jinja2.nodes import Node",
"class NodeVisitor(object):\n \"\"\"Walks the abstract syntax tree and call visitor functions for ... |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
# you don't neet to do this if you have installed accost in your system python path
import sys
import os
base_path = os.path.abspath(os.path.dirname(__file__))
sys.path.insert(0, os.path.join(base_path, '..', '..'))
# a typical usage to setup your own project
from accost im... | [
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],
[
1,
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1,
0,
0,
688,
0,
0
],
[
14,
0,
0.4,
0.0667,
0,
0.66,... | [
"import sys",
"import os",
"base_path = os.path.abspath(os.path.dirname(__file__))",
"sys.path.insert(0, os.path.join(base_path, '..', '..'))",
"from accost import WSGIApplication",
"from accost.middlewares import *",
"import helloworld",
"from accost.cli import Command",
"application = WSGIApplicat... |
# -*- coding: utf-8 -*-
from accost.shortcuts import *
class Root(Handler):
rule = Rule('/')
def get(self):
return Response('Hello World!')
| [
[
1,
0,
0.25,
0.125,
0,
0.66,
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647,
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0
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[
3,
0,
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566,
0,
1,
0,
0,
284,
0,
2
],
[
14,
1,
0.75,
0.125,
1,
0.25,
0,
... | [
"from accost.shortcuts import *",
"class Root(Handler):\n rule = Rule('/')\n def get(self):\n return Response('Hello World!')",
" rule = Rule('/')",
" def get(self):\n return Response('Hello World!')",
" return Response('Hello World!')"
] |
# -*- coding: utf-8 -*-
from google.appengine.ext import db
class Word(db.Model):
word = db.StringProperty()
paraphrase = db.StringProperty(multiline=True)
sort_id = db.IntegerProperty()
| [
[
1,
0,
0.25,
0.125,
0,
0.66,
0,
167,
0,
1,
0,
0,
167,
0,
0
],
[
3,
0,
0.8125,
0.5,
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1,
275,
0,
0,
0,
0,
697,
0,
3
],
[
14,
1,
0.75,
0.125,
1,
0.64,
0,
... | [
"from google.appengine.ext import db",
"class Word(db.Model):\n word = db.StringProperty()\n paraphrase = db.StringProperty(multiline=True)\n sort_id = db.IntegerProperty()",
" word = db.StringProperty()",
" paraphrase = db.StringProperty(multiline=True)",
" sort_id = db.IntegerProperty()"... |
# -*- coding: utf-8 -*-
from www.shortcuts import *
from google.appengine.api import users
from google.appengine.ext import db
import random
import os
import csv
def get_word_ids():
word_ids = cache.get("word_ids")
if not word_ids:
keys = db.GqlQuery("select __key__ from Word")
word_ids = set(... | [
[
1,
0,
0.0179,
0.0089,
0,
0.66,
0,
188,
0,
1,
0,
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0
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[
1,
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0,
1,
0,
0,
279,
0,
0
],
[
1,
0,
0.0357,
0.0089,
0,
... | [
"from www.shortcuts import *",
"from google.appengine.api import users",
"from google.appengine.ext import db",
"import random",
"import os",
"import csv",
"def get_word_ids():\n word_ids = cache.get(\"word_ids\")\n if not word_ids:\n keys = db.GqlQuery(\"select __key__ from Word\")\n ... |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
# you don't neet to do this if you have installed accost in your system python path
import sys
import os
base_path = os.path.abspath(os.path.dirname(__file__))
sys.path.insert(0, os.path.join(base_path, '..', '..'))
# a typical usage to setup your own project
from werkzeug... | [
[
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0,
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[
1,
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1,
0,
0,
688,
0,
0
],
[
14,
0,
0.3529,
0.0588,
0,
... | [
"import sys",
"import os",
"base_path = os.path.abspath(os.path.dirname(__file__))",
"sys.path.insert(0, os.path.join(base_path, '..', '..'))",
"from werkzeug import DebuggedApplication",
"from accost import WSGIApplication",
"from accost.middlewares import *",
"from accost.cli import Command",
"imp... |
# -*- coding: utf-8 -*-
from ebank.shortcuts import *
from ebank.alipay import AlipayService
class Index(Handler):
rule = Rule('/alipay/')
def get(self):
alipay = AlipayService()
tmpl = env.get_template('alipay.html')
return Response(tmpl.render(
alipay = alipay,
))... | [
[
1,
0,
0.08,
0.04,
0,
0.66,
0,
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0,
1,
0,
0,
213,
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[
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0,
148,
0,
0
],
[
3,
0,
0.38,
0.32,
0,
0.66,
0.5,... | [
"from ebank.shortcuts import *",
"from ebank.alipay import AlipayService",
"class Index(Handler):\n rule = Rule('/alipay/')\n def get(self):\n alipay = AlipayService()\n tmpl = env.get_template('alipay.html')\n return Response(tmpl.render(\n alipay = alipay,\n ))",
... |
# -*- coding: utf-8 -*-
import hashlib
from datetime import datetime
from ebank.shortcuts import *
class Send(Handler):
rule = Rule('/')
def get(self):
tmpl = env.get_template('ChinaBank.html')
return Response(tmpl.render())
def post(self):
# 商户号，这里为测试商户号1001，替换为自己的商户号(老版商户号为4位或5位... | [
[
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0.0198,
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0,
0,
426,
0,
0
],
[
1,
0,
0.0396,
0.0099,
0,
0.6... | [
"import hashlib",
"from datetime import datetime",
"from ebank.shortcuts import *",
"class Send(Handler):\n rule = Rule('/')\n def get(self):\n tmpl = env.get_template('ChinaBank.html')\n return Response(tmpl.render())\n\n def post(self):\n # 商户号，这里为测试商户号1001，替换为自己的商户号(老版商户号为4位或5... |
# -*- coding: utf-8 -*-
from ebank.shortcuts import *
import os
class Static(StaticHandler):
rule = Rule('/static/<path:path>')
static_dir = os.path.join(base_path, 'static')
| [
[
1,
0,
0.25,
0.125,
0,
0.66,
0,
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0,
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0,
0,
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0
],
[
3,
0,
0.875,
0.375,
0,
0.66,
... | [
"from ebank.shortcuts import *",
"import os",
"class Static(StaticHandler):\n rule = Rule('/static/<path:path>')\n static_dir = os.path.join(base_path, 'static')",
" rule = Rule('/static/<path:path>')",
" static_dir = os.path.join(base_path, 'static')"
] |
# -*- coding: utf-8 -*-
from accost.shortcuts import *
from ebank import *
| [
[
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1,
0.3333,
0,
0.66,
1,
432,
0,
1,
0,
0,
432,
0,
0
]
] | [
"from accost.shortcuts import *",
"from ebank import *"
] |
# -*- coding: utf-8 -*-
import urllib
import hashlib
class AlipayService(object):
params = sorted([
'service', 'partner', 'subject', 'body', 'out_trade_no', 'price', 'show_url',
'quantity', 'sender_email', 'return_url', 'notify_url', '_input_charset',
])
paygateway = "https://www.al... | [
[
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0
],
[
3,
0,
0.575,
0.875,
0,
0.66,
... | [
"import urllib",
"import hashlib",
"class AlipayService(object):\n params = sorted([ \n 'service', 'partner', 'subject', 'body', 'out_trade_no', 'price', 'show_url',\n 'quantity', 'sender_email', 'return_url', 'notify_url', '_input_charset',\n ])\n paygateway = \"https://www.alipay.... |
# -*- coding: utf-8 -*-
debug = True
from os.path import abspath, dirname, join
base_path = abspath(dirname(__file__))
from jinja2 import Environment, PackageLoader
env = Environment(loader=PackageLoader('ebank', 'templates'), auto_reload=debug)
| [
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79,
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[
14,
0,
0.625,
0.125,
0,
0.66,
0.5... | [
"debug = True",
"from os.path import abspath, dirname, join",
"base_path = abspath(dirname(__file__))",
"from jinja2 import Environment, PackageLoader",
"env = Environment(loader=PackageLoader('ebank', 'templates'), auto_reload=debug)"
] |
# -*- coding: utf-8 -*-
__abstract__ = 'Test tagzilla'
__copyright__ = 'Copyright (c) 2008, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by NCI under Contract N01-CO-12400.'
__license__ = 'See GLU license for terms by running: glu license'
__revision__ = '$Id$'
import unittest
import... | [
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0
],
[
14,
0,
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"__abstract__ = 'Test tagzilla'",
"__copyright__ = 'Copyright (c) 2008, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by NCI under Contract N01-CO-12400.'",
"__license__ = 'See GLU license for terms by running: glu license'",
"__revision__ = '$Id$'",
"import unittest",
"im... |
# -*- coding: utf-8 -*-
'''
File:
Authors: Kevin Jacobs (jacobs@bioinformed.com)
Created: February 27, 2006
Abstract:
Compatibility: Python 2.5 and above
Requires: No external dependencies, yet...
Version: 0.99
Revision: $Id$
'''
__copyright__ = 'Copyright (c) 2008, BioInformed LLC a... | [
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"'''\nFile:\n\nAuthors: Kevin Jacobs (jacobs@bioinformed.com)\n\nCreated: February 27, 2006\n\nAbstract:",
"__copyright__ = 'Copyright (c) 2008, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by NCI under Contract N01-CO-12400.'",
"__license__ = 'See GLU license for ter... |
# -*- coding: utf-8 -*-
'''
File: clust.py
Authors: Kevin Jacobs (jacobske@bioinformed.com)
Created:
Abstract: Multiple sequence alignment using ClustalW
Requires: Python 2.5, glu
Revision: $Id$
'''
__copyright__ = 'Copyright (c) 2008, BioInformed LLC and the U.S. Department of Healt... | [
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"'''\nFile: clust.py\n\nAuthors: Kevin Jacobs (jacobske@bioinformed.com)\n\nCreated:\n\nAbstract: Multiple sequence alignment using ClustalW",
"__copyright__ = 'Copyright (c) 2008, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by NCI under Contract N01-CO-12400.'",... |
# -*- coding: utf-8 -*-
'''
File: get_seq.py
Authors: Kevin Jacobs (jacobs@bioinformed.com)
Created: Wed May 17 08:51:57 EDT 2006
Abstract:
Compatibility: Python 2.5 and above
Requires: No external dependencies, yet...
Revision: $Id$
'''
__program__ = 'get_seq'
__authors__ = ['... | [
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"__program__ = 'get_seq'",
"__authors__ = ['Kevin Jacobs (jacobs@bioinformed.com)']",
"__copyright__ = 'Copyright (c) 2008, BioInformed LLC and the U.S. Dep... |
# -*- coding: utf-8 -*-
__gluindex__ = False
__abstract__ = 'Fit two-SNP generalized logistic genotype-phenotype association models'
__copyright__ = 'Copyright (c) 2008, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by NCI under Contract N01-CO-12400.'
__license__ = 'See GLU license fo... | [
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"__gluindex__ = False",
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"__copyright__ = 'Copyright (c) 2008, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by NCI under Contract N01-CO-12400.'",
"__license__ = 'See GLU license for ter... |
# -*- coding: utf-8 -*-
'''
File: hapmaptoplink.py
Authors:
Created:
Abstract:
Requires: Python 2.5, glu
Revision: $Id$
'''
__copyright__ = 'Copyright (c) 2008, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by NCI under Contract N01-CO-12400.'
__license__ = 'See G... | [
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8,
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0,
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"'''\nFile: hapmaptoplink.py\n\nAuthors:\n\nCreated:\n\nAbstract:",
"__copyright__ = 'Copyright (c) 2008, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by NCI under Contract N01-CO-12400.'",
"__license__ = 'See GLU license for terms by running: glu license'",
"from iter... |
# -*- coding: utf-8 -*-
'''
File: lbd2sdat.py
Authors: Brian Staats (staatsb@mail.nih.gov)
Kevin Jacobs (jacobske@mail.nih.gov)
Created: 2006-06-15
Abstract: Parses an Illumina Locus by DNA report file and outputs a
genotype matrix or triple stream.
Requires: ... | [
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"'''\nFile: lbd2sdat.py\n\nAuthors: Brian Staats (staatsb@mail.nih.gov)\n Kevin Jacobs (jacobske@mail.nih.gov)\n\nCreated: 2006-06-15",
"__copyright__ = 'Copyright (c) 2008, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by NCI under Contract N01-CO-1... |
'''
Author: Vincent Nijs (+ ?)
Email: v-nijs at kellogg.northwestern.edu
Last Modified: Mon Jan 15 17:56:17 CST 2007
Dependencies: See import statement at the top of this file
'''
from __future__ import division
import time
from itertools import izip
from scipy import c_, ones, dot, stats, diff... | [
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"from __future__ import division",
"import time",
"from itertools import izip",
"from scipy import c_... |
# -*- coding: utf-8 -*-
'''
File: unscramble.py
Authors: Kevin Jacobs (jacobske@mail.nih.gov)
Created: Wed Sep 27 10:25:42 EDT 2006
Abstract: Unscramble either locus identifier mapping between two
genotype matricies by detecting least discordant matches
between... | [
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"'''\nFile: unscramble.py\n\nAuthors: Kevin Jacobs (jacobske@mail.nih.gov)\n\nCreated: Wed Sep 27 10:25:42 EDT 2006\n\nAbstract: Unscramble either locus identifier mapping between two",
"__copyright__ = 'Copyright (c) 2008, BioInformed LLC and the U.S. Department of Health & Human Servic... |
# -*- coding: utf-8 -*-
'''
File: unscramble.py
Authors: Kevin Jacobs (jacobske@mail.nih.gov)
Created: Wed Sep 27 10:25:42 EDT 2006
Abstract: Unscramble either locus identifier mapping between two
genotype matricies by detecting least discordant matches
between... | [
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"'''\nFile: unscramble.py\n\nAuthors: Kevin Jacobs (jacobske@mail.nih.gov)\n\nCreated: Wed Sep 27 10:25:42 EDT 2006\n\nAbstract: Unscramble either locus identifier mapping between two",
"__copyright__ = 'Copyright (c) 2008, BioInformed LLC and the U.S. Department of Health & Human Servic... |
# -*- coding: utf-8 -*-
__gluindex__ = False
__abstract__ = 'Fit two-SNP generalized logistic genotype-phenotype association models'
__copyright__ = 'Copyright (c) 2008, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by NCI under Contract N01-CO-12400.'
__license__ = 'See GLU license fo... | [
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"__gluindex__ = False",
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"__copyright__ = 'Copyright (c) 2008, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by NCI under Contract N01-CO-12400.'",
"__license__ = 'See GLU license for ter... |
#!/usr/bin/env python
# -*- coding: utf-8 -*-
#
# To use:
# python setup.py install
#
import os
import sys
try:
try:
import setuptools
except ImportError:
import distribute_setup
distribute_setup.use_setuptools()
except ImportError:
import ez_setup
ez_setup.use_setuptools()
# minimum ver... | [
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"import os",
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" try:\n import setuptools\n\n except ImportError:\n import distribute_setup\n distribute_setup.use_setuptools()",
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# -*- coding: utf-8 -*-
"""
Sphinx - Python documentation webserver
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:copyright: 2007 by Georg Brandl.
:license: Python license.
"""
import sys
if __name__ == '__main__':
from sphinx.web import main
sys.exit(main(sys.argv))
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"\"\"\"\n Sphinx - Python documentation webserver\n ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~\n\n :copyright: 2007 by Georg Brandl.\n :license: Python license.\n\"\"\"",
"import sys",
"if __name__ == '__main__':\n from sphinx.web import main\n sys.exit(main(sys.argv))",
" from sphinx.web im... |
# -*- coding: utf-8 -*-
"""
Sphinx - Python documentation toolchain
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
:copyright: 2007 by Georg Brandl.
:license: Python license.
"""
import sys
if __name__ == '__main__':
if sys.version_info[:3] < (2, 5, 1):
print >>sys.stderr, """\
Error: Sphinx ne... | [
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"\"\"\"\n Sphinx - Python documentation toolchain\n ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~\n\n :copyright: 2007 by Georg Brandl.\n :license: Python license.\n\"\"\"",
"import sys",
"if __name__ == '__main__':\n\n if sys.version_info[:3] < (2, 5, 1):\n print >>sys.stderr, \"\"\"\\\nError: ... |
# -*- coding: utf-8 -*-
#
# GLU documentation build configuration file, created by
# sphinx-quickstart on Sun Jul 20 19:51:43 2008.
#
# This file is execfile()d with the current directory set to its containing dir.
#
# The contents of this file are pickled, so don't put values in the namespace
# that aren't pickleable ... | [
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"import sys, os",
"extensions = ['sphinx.ext.autodoc', 'sphinx.ext.doctest', 'sphinx.ext.pngmath']",
"templates_path = ['templates']",
"source_suffix = '.rst'",
"master_doc = 'contents'",
"project = 'GLU'",
"copyright = '2009, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by... |
# -*- coding: utf-8 -*-
from __future__ import with_statement
__gluindex__ = True
__abstract__ = 'Split a genotype file into multiple pieces based on sample and locus groups'
__copyright__ = 'Copyright (c) 2007-2009, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by NCI under Contract N0... | [
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"from __future__ import with_statement",
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"__abstract__ = 'Split a genotype file into multiple pieces based on sample and locus groups'",
"__copyright__ = 'Copyright (c) 2007-2009, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by NCI under Contract N01-CO-1... |
# -*- coding: utf-8 -*-
from __future__ import division
__gluindex__ = True
__abstract__ = 'Fit single-SNP linear genotype-phenotype association models'
__copyright__ = 'Copyright (c) 2007-2009, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by NCI under Contract N01-CO-12400.'
__license... | [
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"from __future__ import division",
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"__copyright__ = 'Copyright (c) 2007-2009, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by NCI under Contract N01-CO-12400.'",
"__license_... |
# -*- coding: utf-8 -*-
from __future__ import division
__gluindex__ = True
__abstract__ = 'Fit single-SNP generalized logistic genotype-phenotype association models'
__copyright__ = 'Copyright (c) 2007-2009, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by NCI under Contract N01-CO-124... | [
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"__copyright__ = 'Copyright (c) 2007-2009, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by NCI under Contract N01-CO-12400.'",... |
# -*- coding: utf-8 -*-
__gluindex__ = True
__abstract__ = 'Genotype-phenotype association testing'
__copyright__ = 'Copyright (c) 2007-2009, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by NCI under Contract N01-CO-12400.'
__license__ = 'See GLU license for terms by running: glu lice... | [
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"__gluindex__ = True",
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"__copyright__ = 'Copyright (c) 2007-2009, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by NCI under Contract N01-CO-12400.'",
"__license__ = 'See GLU license for terms by running: glu license'"... |
# -*- coding: utf-8 -*-
__gluindex__ = True
__abstract__ = 'Performs various transformation on a genotype files'
__copyright__ = 'Copyright (c) 2007-2009, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by NCI under Contract N01-CO-12400.'
__license__ = 'See GLU license for terms by runn... | [
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14,
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"__gluindex__ = True",
"__abstract__ = 'Performs various transformation on a genotype files'",
"__copyright__ = 'Copyright (c) 2007-2009, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by NCI under Contract N01-CO-12400.'",
"__license__ = 'See GLU license for terms by running: ... |
# -*- coding: utf-8 -*-
__gluindex__ = True
__abstract__ = 'Generate a matrix of pairwise LD values'
__copyright__ = 'Copyright (c) 2007-2009, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by NCI under Contract N01-CO-12400.'
__license__ = 'See GLU license for terms by running: glu lic... | [
[
14,
0,
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0.0099,
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0,
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0
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[
14,
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"__gluindex__ = True",
"__abstract__ = 'Generate a matrix of pairwise LD values'",
"__copyright__ = 'Copyright (c) 2007-2009, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by NCI under Contract N01-CO-12400.'",
"__license__ = 'See GLU license for terms by running: glu license'... |
# -*- coding: utf-8 -*-
__gluindex__ = True
__program__ = 'TagZilla binsum'
__authors__ = ['Kevin Jacobs (jacobs@bioinformed.com)']
__abstract__ = 'Generate summaries from multiple TagZilla output files'
__copyright__ = 'Copyright (c) 2007-2009, BioInformed LLC and the U.S. Department of Health & Human Services.... | [
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0.... | [
"__gluindex__ = True",
"__program__ = 'TagZilla binsum'",
"__authors__ = ['Kevin Jacobs (jacobs@bioinformed.com)']",
"__abstract__ = 'Generate summaries from multiple TagZilla output files'",
"__copyright__ = 'Copyright (c) 2007-2009, BioInformed LLC and the U.S. Department of Health & Human Services.... |
# -*- coding: utf-8 -*-
__gluindex__ = True
__program__ = 'TagZilla LD filter'
__authors__ = ['Kevin Jacobs (jacobs@bioinformed.com)']
__abstract__ = 'Sequentially filter a list of SNPs based on an LD threshold'
__copyright__ = 'Copyright (c) 2007-2009, BioInformed LLC and the U.S. Department of Health & Human S... | [
[
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[
14,
0,
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0.0044,
0,
0.... | [
"__gluindex__ = True",
"__program__ = 'TagZilla LD filter'",
"__authors__ = ['Kevin Jacobs (jacobs@bioinformed.com)']",
"__abstract__ = 'Sequentially filter a list of SNPs based on an LD threshold'",
"__copyright__ = 'Copyright (c) 2007-2009, BioInformed LLC and the U.S. Department of Health & Human S... |
# -*- coding: utf-8 -*-
__gluindex__ = True
__program__ = 'TagZilla coverage'
__authors__ = ['Kevin Jacobs (jacobs@bioinformed.com)']
__abstract__ = 'Evaluate maximum coverage of a set of tags'
__copyright__ = 'Copyright (c) 2007-2009, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by... | [
[
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[
14,
0,
0.0379,
0.0076,
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0.... | [
"__gluindex__ = True",
"__program__ = 'TagZilla coverage'",
"__authors__ = ['Kevin Jacobs (jacobs@bioinformed.com)']",
"__abstract__ = 'Evaluate maximum coverage of a set of tags'",
"__copyright__ = 'Copyright (c) 2007-2009, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by... |
# -*- coding: utf-8 -*-
__program__ = 'TagZilla'
__gluindex__ = True
__authors__ = ['Kevin Jacobs (jacobs@bioinformed.com)',
'Zhaoming Wang (wangzha@mail.nih.gov)']
__abstract__ = 'Robust and fast SNP tagging program'
__descr__ = '''\
A robust and fast SNP binning and tagging program that ta... | [
[
14,
0,
0.0014,
0.0005,
0,
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0,
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3,
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[
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34,
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[
14,
0,
0.0026,
0.0009,
0,
0.... | [
"__program__ = 'TagZilla'",
"__gluindex__ = True",
"__authors__ = ['Kevin Jacobs (jacobs@bioinformed.com)',\n 'Zhaoming Wang (wangzha@mail.nih.gov)']",
"__abstract__ = 'Robust and fast SNP tagging program'",
"__descr__ = '''\\\nA robust and fast SNP binning and tagging program that... |
# -*- coding: utf-8 -*-
__gluindex__ = True
__authors__ = ['Kevin Jacobs (jacobs@bioinformed.com)']
__abstract__ = 'Find surrogates SNPs'
__copyright__ = 'Copyright (c) 2007-2009, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by NCI under Contract N01-CO-12400.'
__license__ = 'See GL... | [
[
14,
0,
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34,
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0,
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[
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0.0217,
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115,
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0,
0,
0,
0,
5,
0
],
[
14,
0,
0.0272,
0.0054,
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0.... | [
"__gluindex__ = True",
"__authors__ = ['Kevin Jacobs (jacobs@bioinformed.com)']",
"__abstract__ = 'Find surrogates SNPs'",
"__copyright__ = 'Copyright (c) 2007-2009, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by NCI under Contract N01-CO-12400.'",
"__license__ = 'See GL... |
# -*- coding: utf-8 -*-
__gluindex__ = True
__index__ = 'LD estimation and tagging'
__copyright__ = 'Copyright (c) 2007-2009, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by NCI under Contract N01-CO-12400.'
__license__ = 'See GLU license for terms by running: glu license'
__revisi... | [
[
14,
0,
0.4286,
0.1429,
0,
0.66,
0,
34,
1,
0,
0,
0,
0,
4,
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[
14,
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0.5714,
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1,
0,
0,
0,
0,
3,
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],
[
14,
0,
0.7143,
0.1429,
0,
0.66... | [
"__gluindex__ = True",
"__index__ = 'LD estimation and tagging'",
"__copyright__ = 'Copyright (c) 2007-2009, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by NCI under Contract N01-CO-12400.'",
"__license__ = 'See GLU license for terms by running: glu license'",
"__revisi... |
# -*- coding: utf-8 -*-
from __future__ import division
__gluindex__ = True
__abstract__ = 'Convert a GDAT file into series of PennCNV input files'
__copyright__ = 'Copyright (c) 2010, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by NCI under Contract N01-CO-12400.'
__license__ = 'Se... | [
[
1,
0,
0.0698,
0.0233,
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0.66,
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1,
0,
0,
777,
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[
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0.0233,
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[
14,
0,
0.1395,
0.0233,
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0... | [
"from __future__ import division",
"__gluindex__ = True",
"__abstract__ = 'Convert a GDAT file into series of PennCNV input files'",
"__copyright__ = 'Copyright (c) 2010, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by NCI under Contract N01-CO-12400.'",
"__license__ = 'See... |
# -*- coding: utf-8 -*-
__gluindex__ = True
__abstract__ = 'Dump the contents of an Illumina BPM Manifest file to a text file'
__copyright__ = 'Copyright (c) 2007-2009, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by NCI under Contract N01-CO-12400.'
__license__ = 'See GLU license for... | [
[
14,
0,
0.075,
0.025,
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0.66,
0,
34,
1,
0,
0,
0,
0,
4,
0
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[
14,
0,
0.1,
0.025,
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0.66,
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929,
1,
0,
0,
0,
0,
3,
0
],
[
14,
0,
0.125,
0.025,
0,
0.66,
0.2... | [
"__gluindex__ = True",
"__abstract__ = 'Dump the contents of an Illumina BPM Manifest file to a text file'",
"__copyright__ = 'Copyright (c) 2007-2009, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by NCI under Contract N01-CO-12400.'",
"__license__ = 'See GLU license for term... |
# -*- coding: utf-8 -*-
__gluindex__ = True
__abstract__ = 'Convert GLU GDAT file into any other supported GLU genotype data format'
__copyright__ = 'Copyright (c) 2010, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by NCI under Contract N01-CO-12400.'
__license__ = 'See GLU license fo... | [
[
14,
0,
0.0545,
0.0182,
0,
0.66,
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34,
1,
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0,
0,
0,
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0
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[
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],
[
14,
0,
0.0909,
0.0182,
0,
0.6... | [
"__gluindex__ = True",
"__abstract__ = 'Convert GLU GDAT file into any other supported GLU genotype data format'",
"__copyright__ = 'Copyright (c) 2010, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by NCI under Contract N01-CO-12400.'",
"__license__ = 'See GLU license for ter... |
# -*- coding: utf-8 -*-
from __future__ import division
__gluindex__ = True
__abstract__ = 'Convert a GDAT file into series of GADA input files'
__copyright__ = 'Copyright (c) 2010, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by NCI under Contract N01-CO-12400.'
__license__ = 'See G... | [
[
1,
0,
0.028,
0.0093,
0,
0.66,
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777,
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1,
0,
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777,
0,
0
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[
14,
0,
0.0467,
0.0093,
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0.66,
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1,
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0,
0,
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],
[
14,
0,
0.0561,
0.0093,
0,
0.... | [
"from __future__ import division",
"__gluindex__ = True",
"__abstract__ = 'Convert a GDAT file into series of GADA input files'",
"__copyright__ = 'Copyright (c) 2010, BioInformed LLC and the U.S. Department of Health & Human Services. Funded by NCI under Contract N01-CO-12400.'",
"__license__ = 'See GL... |
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